Hmdb loader

Showing metabocard for 3-Methylglutaconic acid (HMDB0000522)

Jump To Section:
IdentificationTaxonomyOntologyPhysical propertiesSpectraBiological propertiesConcentrationsLinksReferencesXML
Record Information
Version5.0
StatusDetected and Quantified
Creation Date2005-11-16 15:48:42 UTC
Update Date2023-02-21 17:14:54 UTC
HMDB IDHMDB0000522
Secondary Accession Numbers
  • HMDB00522
Metabolite Identification
Common Name3-Methylglutaconic acid
Description3-Methylglutaconic acid is an intermediate (as the CoA thioester) in the leucine degradative pathway as well as the mevalonate shunt, a pathway that links isoprenoid metabolism with mitochondrial acetyl-CoA metabolism (PMID: 7603789 ). 3-methylglutaconyl-CoA hydratase is involved in the metabolism process of 3-methylglutaconic acid. When present in sufficiently high levels, 3-methylglutaconic acid can act as an acidogen and a metabotoxin. An acidogen is an acidic compound that induces acidosis, which has multiple adverse effects on many organ systems. A metabotoxin is an endogenously produced metabolite that causes adverse health effects at chronically high levels. Chronically high levels of 3-methylglutaconic acid are associated with at least five inborn errors of metabolism including 3-hydroxy-3-methylglutaryl-CoA lyase deficiency, 3-methylglutaconic aciduria type I, 3-methylglutaconic aciduria type III, 3-methylglutaconic aciduria type IV, and guanidinoacetate methyltransferase deficiency (GAMT deficiency). 3-Methylglutaconic acid is an organic acid. Abnormally high levels of organic acids in the blood (organic acidemia), urine (organic aciduria), the brain, and other tissues lead to general metabolic acidosis. Acidosis typically occurs when arterial pH falls below 7.35. In infants with acidosis, the initial symptoms include poor feeding, vomiting, loss of appetite, weak muscle tone (hypotonia), and lack of energy (lethargy). These can progress to heart, liver, and kidney abnormalities, seizures, coma, and possibly death. These are also the characteristic symptoms of the untreated IEMs mentioned above. Many affected children with organic acidemias experience intellectual disability or delayed development. In adults, acidosis or acidemia is characterized by headaches, confusion, feeling tired, tremors, sleepiness, and seizures.
Structure
Data?1676999694
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0000522 (3-Methylglutaconic acid)

3-Methylglutaconic acid.mol
  Mrv1652302121822452D          

 10  9  0  0  0  0            999 V2000
    1.4289   -0.2062    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.6188    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -0.2063    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -0.6188    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289   -0.2063    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.6188    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -0.6188    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.6187    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1434   -0.6188    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.6187    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  1  6  2  0  0  0  0
  1  7  1  0  0  0  0
  5  8  2  0  0  0  0
  5  9  1  0  0  0  0
  3 10  1  0  0  0  0
M  END
Download

3D MOL for HMDB0000522 (3-Methylglutaconic acid)

HMDB0000522
     RDKit          3D
3-Methylglutaconic acid
 18 17  0  0  0  0  0  0  0  0999 V2000
   -0.7065   -1.7463    0.3997 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0652   -0.3827    0.2504 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9037    0.6154    0.1088 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3418    0.4232    0.0966 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9349   -0.6731    0.2149 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2046    1.5225   -0.0578 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3977   -0.3381    0.2812 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0706    0.9376    0.1436 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5860    2.0619   -0.0043 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4871    0.9095    0.1820 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2808   -1.8404    1.3186 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2292   -2.0328   -0.5339 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1009   -2.5374    0.4900 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5472    1.6381   -0.0063 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9917    2.3065   -0.6483 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6740   -0.7241    1.3251 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8402   -1.1010   -0.4264 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0488    0.9611   -0.6385 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  3  4  1  0
  4  5  2  0
  4  6  1  0
  2  7  1  0
  7  8  1  0
  8  9  2  0
  8 10  1  0
  1 11  1  0
  1 12  1  0
  1 13  1  0
  3 14  1  0
  6 15  1  0
  7 16  1  0
  7 17  1  0
 10 18  1  0
M  END
Download

3D SDF for HMDB0000522 (3-Methylglutaconic acid)

3-Methylglutaconic acid.mol
  Mrv1652302121822452D          

 10  9  0  0  0  0            999 V2000
    1.4289   -0.2062    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.6188    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -0.2063    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -0.6188    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289   -0.2063    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.6188    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -0.6188    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.6187    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1434   -0.6188    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.6187    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  1  6  2  0  0  0  0
  1  7  1  0  0  0  0
  5  8  2  0  0  0  0
  5  9  1  0  0  0  0
  3 10  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0000522

> <DATABASE_NAME>
hmdb

> <SMILES>
C\C(CC(O)=O)=C/C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C6H8O4/c1-4(2-5(7)8)3-6(9)10/h2H,3H2,1H3,(H,7,8)(H,9,10)/b4-2+

> <INCHI_KEY>
WKRBKYFIJPGYQC-DUXPYHPUSA-N

> <FORMULA>
C6H8O4

> <MOLECULAR_WEIGHT>
144.1253

> <EXACT_MASS>
144.042258744

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
18

> <JCHEM_AVERAGE_POLARIZABILITY>
13.266891782956623

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2E)-3-methylpent-2-enedioic acid

> <ALOGPS_LOGP>
0.37

> <JCHEM_LOGP>
0.287270459

> <ALOGPS_LOGS>
-1.22

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
4.659788519242309

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.854151000940069

> <JCHEM_POLAR_SURFACE_AREA>
74.6

> <JCHEM_REFRACTIVITY>
33.5133

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.69e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
β-methylglutaconic acid

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for HMDB0000522 (3-Methylglutaconic acid)

HMDB0000522
     RDKit          3D
3-Methylglutaconic acid
 18 17  0  0  0  0  0  0  0  0999 V2000
   -0.7065   -1.7463    0.3997 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0652   -0.3827    0.2504 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9037    0.6154    0.1088 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3418    0.4232    0.0966 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9349   -0.6731    0.2149 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2046    1.5225   -0.0578 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3977   -0.3381    0.2812 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0706    0.9376    0.1436 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5860    2.0619   -0.0043 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4871    0.9095    0.1820 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2808   -1.8404    1.3186 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2292   -2.0328   -0.5339 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1009   -2.5374    0.4900 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5472    1.6381   -0.0063 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9917    2.3065   -0.6483 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6740   -0.7241    1.3251 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8402   -1.1010   -0.4264 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0488    0.9611   -0.6385 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  3  4  1  0
  4  5  2  0
  4  6  1  0
  2  7  1  0
  7  8  1  0
  8  9  2  0
  8 10  1  0
  1 11  1  0
  1 12  1  0
  1 13  1  0
  3 14  1  0
  6 15  1  0
  7 16  1  0
  7 17  1  0
 10 18  1  0
M  END
Download

PDB for HMDB0000522 (3-Methylglutaconic acid)

HEADER    PROTEIN                                 12-FEB-18   NONE
TITLE     NULL                                                        
COMPND    MOLECULE: 3-Methylglutaconic acid.mol                       
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-FEB-18         0                                  
HETATM    1  C   UNK     0       2.667  -0.385   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.334  -1.155   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.000  -0.385   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -1.334  -1.155   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -2.667  -0.385   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0       2.667   1.155   0.000  0.00  0.00           O+0
HETATM    7  O   UNK     0       4.001  -1.155   0.000  0.00  0.00           O+0
HETATM    8  O   UNK     0      -2.667   1.155   0.000  0.00  0.00           O+0
HETATM    9  O   UNK     0      -4.001  -1.155   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       0.000   1.155   0.000  0.00  0.00           C+0
CONECT    1    2    6    7                                                  
CONECT    2    1    3                                                       
CONECT    3    2    4   10                                                  
CONECT    4    3    5                                                       
CONECT    5    4    8    9                                                  
CONECT    6    1                                                            
CONECT    7    1                                                            
CONECT    8    5                                                            
CONECT    9    5                                                            
CONECT   10    3                                                            
MASTER        0    0    0    0    0    0    0    0   10    0   18    0
END
Download

3D PDB for HMDB0000522 (3-Methylglutaconic acid)

COMPND    HMDB0000522
HETATM    1  C1  UNL     1      -0.707  -1.746   0.400  1.00  0.00           C  
HETATM    2  C2  UNL     1      -0.065  -0.383   0.250  1.00  0.00           C  
HETATM    3  C3  UNL     1      -0.904   0.615   0.109  1.00  0.00           C  
HETATM    4  C4  UNL     1      -2.342   0.423   0.097  1.00  0.00           C  
HETATM    5  O1  UNL     1      -2.935  -0.673   0.215  1.00  0.00           O  
HETATM    6  O2  UNL     1      -3.205   1.522  -0.058  1.00  0.00           O  
HETATM    7  C5  UNL     1       1.398  -0.338   0.281  1.00  0.00           C  
HETATM    8  C6  UNL     1       2.071   0.938   0.144  1.00  0.00           C  
HETATM    9  O3  UNL     1       1.586   2.062  -0.004  1.00  0.00           O  
HETATM   10  O4  UNL     1       3.487   0.910   0.182  1.00  0.00           O  
HETATM   11  H1  UNL     1      -1.281  -1.840   1.319  1.00  0.00           H  
HETATM   12  H2  UNL     1      -1.229  -2.033  -0.534  1.00  0.00           H  
HETATM   13  H3  UNL     1       0.101  -2.537   0.490  1.00  0.00           H  
HETATM   14  H4  UNL     1      -0.547   1.638  -0.006  1.00  0.00           H  
HETATM   15  H5  UNL     1      -2.992   2.306  -0.648  1.00  0.00           H  
HETATM   16  H6  UNL     1       1.674  -0.724   1.325  1.00  0.00           H  
HETATM   17  H7  UNL     1       1.840  -1.101  -0.426  1.00  0.00           H  
HETATM   18  H8  UNL     1       4.049   0.961  -0.639  1.00  0.00           H  
CONECT    1    2   11   12   13
CONECT    2    3    3    7
CONECT    3    4   14
CONECT    4    5    5    6
CONECT    6   15
CONECT    7    8   16   17
CONECT    8    9    9   10
CONECT   10   18
END
Download

SMILES for HMDB0000522 (3-Methylglutaconic acid)

C\C(CC(O)=O)=C/C(O)=O
Download

INCHI for HMDB0000522 (3-Methylglutaconic acid)

InChI=1S/C6H8O4/c1-4(2-5(7)8)3-6(9)10/h2H,3H2,1H3,(H,7,8)(H,9,10)/b4-2+
Download
View in JSmolView Stereo Labels
Synonyms
ValueSource
3-MethylglutaconateGenerator
b-MethylglutaconateHMDB
b-Methylglutaconic acidHMDB
beta-MethylglutaconateHMDB
beta-Methylglutaconic acidHMDB
Β-methylglutaconic acidHMDB
3-Methyl-2-pentenedioic acidHMDB
3E-MethylglutaconateHMDB
3-Methylglutaconic acidHMDB, MeSH
Chemical FormulaC6H8O4
Average Molecular Weight144.1253
Monoisotopic Molecular Weight144.042258744
IUPAC Name(2E)-3-methylpent-2-enedioic acid
Traditional Nameβ-methylglutaconic acid
CAS Registry Number5746-90-7
SMILES
C\C(CC(O)=O)=C/C(O)=O
InChI Identifier
InChI=1S/C6H8O4/c1-4(2-5(7)8)3-6(9)10/h2H,3H2,1H3,(H,7,8)(H,9,10)/b4-2+
InChI KeyWKRBKYFIJPGYQC-DUXPYHPUSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as methyl-branched fatty acids. These are fatty acids with an acyl chain that has a methyl branch. Usually, they are saturated and contain only one or more methyl group. However, branches other than methyl may be present.
KingdomOrganic compounds
Super ClassLipids and lipid-like molecules
ClassFatty Acyls
Sub ClassFatty acids and conjugates
Direct ParentMethyl-branched fatty acids
Alternative Parents
Substituents
  • Methyl-branched fatty acid
  • Unsaturated fatty acid
  • Dicarboxylic acid or derivatives
  • Carboxylic acid
  • Carboxylic acid derivative
  • Organic oxygen compound
  • Organic oxide
  • Hydrocarbon derivative
  • Organooxygen compound
  • Carbonyl group
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Ontology
Physiological effect
Health effect
Disposition
Biological locationRoute of exposureSource
Process
Naturally occurring process
Role
Biological roleIndustrial applicationIndirect biological role
Physical Properties
StateSolid
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
Water Solubility8.69 g/LALOGPS
logP0.37ALOGPS
logP0.29ChemAxon
logS-1.2ALOGPS
pKa (Strongest Acidic)3.85ChemAxon
Physiological Charge-2ChemAxon
Hydrogen Acceptor Count4ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area74.6 ŲChemAxon
Rotatable Bond Count3ChemAxon
Refractivity33.51 m³·mol⁻¹ChemAxon
Polarizability13.27 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DarkChem[M+H]+132.71331661259
DarkChem[M-H]-126.53131661259
AllCCS[M+H]+132.69232859911
AllCCS[M-H]-127.88732859911
DeepCCS[M+H]+132.03230932474
DeepCCS[M-H]-128.19930932474
DeepCCS[M-2H]-165.14830932474
DeepCCS[M+Na]+140.59130932474
AllCCS[M+H]+132.732859911
AllCCS[M+H-H2O]+128.632859911
AllCCS[M+NH4]+136.532859911
AllCCS[M+Na]+137.632859911
AllCCS[M-H]-127.932859911
AllCCS[M+Na-2H]-130.132859911
AllCCS[M+HCOO]-132.632859911

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
3-Methylglutaconic acidC\C(CC(O)=O)=C/C(O)=O2220.8Standard polar33892256
3-Methylglutaconic acidC\C(CC(O)=O)=C/C(O)=O1226.4Standard non polar33892256
3-Methylglutaconic acidC\C(CC(O)=O)=C/C(O)=O1383.3Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
3-Methylglutaconic acid,1TMS,isomer #1C/C(=C\C(=O)O)CC(=O)O[Si](C)(C)C1426.9Semi standard non polar33892256
3-Methylglutaconic acid,1TMS,isomer #2C/C(=C\C(=O)O[Si](C)(C)C)CC(=O)O1393.8Semi standard non polar33892256
3-Methylglutaconic acid,2TMS,isomer #1C/C(=C\C(=O)O[Si](C)(C)C)CC(=O)O[Si](C)(C)C1470.6Semi standard non polar33892256
3-Methylglutaconic acid,1TBDMS,isomer #1C/C(=C\C(=O)O)CC(=O)O[Si](C)(C)C(C)(C)C1661.6Semi standard non polar33892256
3-Methylglutaconic acid,1TBDMS,isomer #2C/C(=C\C(=O)O[Si](C)(C)C(C)(C)C)CC(=O)O1637.9Semi standard non polar33892256
3-Methylglutaconic acid,2TBDMS,isomer #1C/C(=C\C(=O)O[Si](C)(C)C(C)(C)C)CC(=O)O[Si](C)(C)C(C)(C)C1894.3Semi standard non polar33892256
Spectra

GC-MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (Non-derivatized) - 70eV, Positivesplash10-0015-9200000000-ff306cede85d252e0d4c2017-09-01Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (2 TMS) - 70eV, Positivesplash10-00di-9340000000-0b493822a103307b8f662017-10-06Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (Non-derivatized) - 70eV, PositiveNot Available2021-10-12Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (TMS_1_1) - 70eV, PositiveNot Available2021-11-05Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (TMS_1_2) - 70eV, PositiveNot Available2021-11-05Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (TBDMS_1_1) - 70eV, PositiveNot Available2021-11-05Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (TBDMS_1_2) - 70eV, PositiveNot Available2021-11-05Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - 3-Methylglutaconic acid GC-MS (TBDMS_2_1) - 70eV, PositiveNot Available2021-11-05Wishart LabView Spectrum

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Experimental LC-MS/MSLC-MS/MS Spectrum - 3-Methylglutaconic acid 40V, Negative-QTOFsplash10-000f-9000000000-fa6952af79fc3b2759fe2021-09-20HMDB team, MONAView Spectrum
Experimental LC-MS/MSLC-MS/MS Spectrum - 3-Methylglutaconic acid 20V, Negative-QTOFsplash10-0a4j-9000000000-3a5a017393a0592a65ff2021-09-20HMDB team, MONAView Spectrum
Experimental LC-MS/MSLC-MS/MS Spectrum - 3-Methylglutaconic acid 40V, Negative-QTOFsplash10-000f-9000000000-14ef6163925508d3f6662021-09-20HMDB team, MONAView Spectrum
Experimental LC-MS/MSLC-MS/MS Spectrum - 3-Methylglutaconic acid 10V, Negative-QTOFsplash10-0002-9000000000-ada755597943f74819c42021-09-20HMDB team, MONAView Spectrum
Experimental LC-MS/MSLC-MS/MS Spectrum - 3-Methylglutaconic acid 10V, Negative-QTOFsplash10-0002-9000000000-70f10348ac9e844187652021-09-20HMDB team, MONAView Spectrum
Experimental LC-MS/MSLC-MS/MS Spectrum - 3-Methylglutaconic acid 20V, Negative-QTOFsplash10-0a4i-9000000000-5a9ee69bdb3960321fa62021-09-20HMDB team, MONAView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 10V, Positive-QTOFsplash10-002b-2900000000-b6862aeffb1aa9fae1d02016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 20V, Positive-QTOFsplash10-000i-9300000000-7ab01dfb0b86abdac8172016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 40V, Positive-QTOFsplash10-0006-9000000000-3692ceff17a888ae88362016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 10V, Negative-QTOFsplash10-0006-5900000000-dc4d4a80a164f3fd1fea2016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 20V, Negative-QTOFsplash10-0007-8900000000-7ece848c8011e4a202002016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 40V, Negative-QTOFsplash10-0a7l-9300000000-8b54483c15a17429b9f82016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 10V, Negative-QTOFsplash10-0002-9200000000-70569e6181007374644c2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 20V, Negative-QTOFsplash10-000t-9000000000-9426c88487da5c337c1b2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 40V, Negative-QTOFsplash10-000x-9000000000-60467181d27d878d6aca2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 10V, Positive-QTOFsplash10-0002-9400000000-79724b8b1198fb4429492021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 20V, Positive-QTOFsplash10-001j-9000000000-4f399595435fe16b38802021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 3-Methylglutaconic acid 40V, Positive-QTOFsplash10-001c-9000000000-1ee161ce72a30f1b08142021-09-24Wishart LabView Spectrum

NMR Spectra

Spectrum TypeDescriptionDeposition DateSourceView
Predicted 1D NMR13C NMR Spectrum (1D, 100 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 100 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 1000 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 1000 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 200 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 200 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 300 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 300 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 400 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 400 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 500 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 500 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 600 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 600 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 700 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 700 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 800 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 800 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR13C NMR Spectrum (1D, 900 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum
Predicted 1D NMR1H NMR Spectrum (1D, 900 MHz, H2O, predicted)2022-08-18Wishart LabView Spectrum

IR Spectra

Spectrum TypeDescriptionDeposition DateSourceView
Predicted IR SpectrumIR Ion Spectrum (Quadrupole Ion Trap, ESI+, Adduct: [M+H]+)2022-02-11FELIX labView Spectrum
Predicted IR SpectrumIR Ion Spectrum (Quadrupole Ion Trap, ESI-, Adduct: [M-H]-)2022-02-11FELIX labView Spectrum
Predicted IR SpectrumIR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M-H]-)2023-02-03FELIX labView Spectrum
Predicted IR SpectrumIR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M+H]+)2023-02-03FELIX labView Spectrum
Predicted IR SpectrumIR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M+Na]+)2023-02-03FELIX labView Spectrum
Biological Properties
Cellular Locations
  • Cytoplasm
  • Extracellular
  • Membrane
Biospecimen Locations
  • Blood
  • Cerebrospinal Fluid (CSF)
  • Feces
  • Urine
Tissue Locations
  • Placenta
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
Cerebrospinal Fluid (CSF)Detected and Quantified<10 uMAdult (>18 years old)FemaleNormal details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
UrineDetected and Quantified<6 umol/mmol creatinineChildren (1-13 years old)Not SpecifiedNormal details
UrineDetected and Quantified0-26 umol/mmol creatinineNewborn (0-30 days old)Both
Normal		 details
UrineDetected and Quantified<10 umol/mmol creatinineNot SpecifiedNot SpecifiedNormal details
UrineDetected and Quantified<20 umol/mmol creatinineNot SpecifiedNot SpecifiedNormal details
UrineDetected and Quantified<1500 umol/mmol creatinineNot SpecifiedNot SpecifiedNormal details
UrineDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
UrineDetected and Quantified<25 umol/mmol creatinineAdult (>18 years old)FemaleNormal details
UrineDetected and Quantified1.0 - 6.5 umol/mmol creatinineAdult (>18 years old)FemaleNormal details
UrineDetected and Quantified0-0.2 umol/mmol creatinineInfant (0-1 year old)Female
Normal		 details
UrineDetected and Quantified0-4 umol/mmol creatinineInfant (0-1 year old)Male
Normal		 details
UrineDetected and Quantified0-6.0 umol/mmol creatinineInfant (0-1 year old)Male
Normal		 details
UrineDetected and Quantified1.8-7.6 umol/mmol creatinineInfant (0-1 year old)Female
Normal		 details
UrineDetected and Quantified<6 umol/mmol creatinineNot SpecifiedNot SpecifiedNormal details
UrineDetected and Quantified<12.42 umol/mmol creatinineChildren (1 - 18 years old)Both
Normal
    • BC Children's Hos...
 details
UrineDetected and Quantified<25 umol/mmol creatinineNot SpecifiedNot SpecifiedNormal details
UrineDetected and Quantified<12 umol/mmol creatinineChildren (1-13 years old)Not SpecifiedNormal details
UrineDetected and Quantified<20 umol/mmol creatinineInfant (0-1 year old)Not SpecifiedNormal details
UrineDetected and Quantified<0.0200 umol/mmol creatinineNot SpecifiedNot SpecifiedNormal details
UrineDetected and Quantified6.2 (2.8-8.3) umol/mmol creatinineAdult (>18 years old)Both
Normal		 details
UrineDetected and Quantified10.707 +/- 4.243 umol/mmol creatinineChildren (1 - 13 years old)Not Specified
Normal
    • Analysis of 30 no...
 details
UrineDetected and Quantified7.5 (3.4-9.5) umol/mmol creatinineAdult (>18 years old)Both
Normal		 details
UrineDetected and Quantified15.86 +/- 6.052 umol/mmol creatinineChildren (1 - 13 years old)Not Specified
Normal
    • Analysis of 30 no...
 details
Abnormal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodExpected but not QuantifiedNot QuantifiedNot SpecifiedNot SpecifiedCancer patients undergoing total body irradiation details
Cerebrospinal Fluid (CSF)Detected and Quantified125 uMAdult (>18 years old)Female3-methylglutaconic aciduria type I details
UrineDetected and Quantified20-488 umol/mmol creatinineChildren (1-13 years old)BothSengers syndrome details
UrineDetected and Quantified750.0 (500.0-1000.0) umol/mmol creatinineChildren (1-13 years old)Both3-Methylglutaconic Aciduria (TYPE I)
    • MetaGene: Metabol...
 details
UrineDetected and Quantified0-230 umol/mmol creatinineInfant (0-1 year old)Male3-methylglutaconic aciduria type II, X-linked details
UrineDetected and Quantified16-68 umol/mmol creatinineAdolescent (13-18 years old)Female3-Methylglutaconic Aciduria (Type IV) details
UrineDetected and Quantified4-200 umol/mmol creatinineChildren (1-13 years old)Both3-Methylglutaconic Aciduria (Type IV) details
UrineDetected and Quantified13000 umol/mmol creatinineChildren (1-13 years old)Male3-Methylglutaconic Aciduria (Type V) details
UrineDetected and Quantified3714 umol/mmol creatinineAdult (>18 years old)Female3-Hydroxy-3-Methylglutaryl-CoA Lyase Deficiency details
UrineDetected and Quantified32-51 umol/mmol creatinineAdult (>18 years old)Female3-methylglutaconic aciduria type I details
UrineDetected and Quantified62-90 umol/mmol creatinineAdult (>18 years old)Female3-methylglutaconic aciduria type I details
UrineDetected and Quantified4166.4 umol/mmol creatinineNewborn (0-30 days old)Male3-Hydroxy-3-Methylglutaryl-CoA Lyase Deficiency details
UrineDetected and Quantified3714 umol/mmol creatinineAdult (>18 years old)Female3-Hydroxy-3-Methylglutaryl-CoA Lyase Deficiency details
UrineDetected and Quantified29-109 umol/mmol creatinineChildren (1-13 years old)Female3-Methylglutaconic Aciduria (Type VII) details
UrineDetected and Quantified34-160 umol/mmol creatinineAdolescent (13-18 years old)Female3-Methylglutaconic Aciduria (Type VII) details
UrineDetected and Quantified52-93 umol/mmol creatinineInfant (0-1 year old)Female3-Methylglutaconic Aciduria (Type VII) details
UrineDetected and Quantified0.0160-0.196 umol/mmol creatinineChildren (1-13 years old)Female3-Methylglutaconic Aciduria (Type VI) details
UrineDetected and Quantified94-141 umol/mmol creatinineAdult (>18 years old)Not Specified
3-Methylglutaconic Aciduria (TYPE I)		 details
UrineDetected and Quantified570 umol/mmol creatinineChildren (1-13 years old)Not Specified3-Methylglutaconic Aciduria (TYPE I) details
UrineDetected and Quantified10.714 +/- 4.929 umol/mmol creatinineChildren (1 - 13 years old)Not Specified
Eosinophilic esophagitis
    • Analysis of 30 no...
 details
UrineDetected and Quantified12.053 +/- 6.469 umol/mmol creatinineChildren (1 - 13 years old)Not Specified
Gastroesophageal reflux disease
    • Analysis of 30 no...
 details
UrineDetected and Quantified14.626 +/- 7.998 umol/mmol creatinineChildren (1 - 13 years old)Not Specified
Eosinophilic esophagitis
    • Analysis of 30 no...
 details
UrineDetected and Quantified4.5 (0.00-9.0) umol/mmol creatinineAdult (>18 years old)Both3-Hydroxy-3-methylglutaryl-CoA lyase deficiency
    • MetaGene: Metabol...
 details
UrineDetected and Quantified17.038 +/- 8.547 umol/mmol creatinineChildren (1 - 13 years old)Not Specified
Gastroesophageal reflux disease
    • Analysis of 30 no...
 details
UrineDetected and Quantified5070.0 (140.0-10000.0) umol/mmol creatinineChildren (1-13 years old)Both3-Hydroxy-3-Methylglutaryl-CoA Lyase Deficiency
    • MetaGene: Metabol...
 details
Associated Disorders and Diseases
Disease References
3-Hydroxy-3-methylglutaryl-CoA lyase deficiency
  1. Bischof F, Nagele T, Wanders RJ, Trefz FK, Melms A: 3-hydroxy-3-methylglutaryl-CoA lyase deficiency in an adult with leukoencephalopathy. Ann Neurol. 2004 Nov;56(5):727-30. [PubMed:15505778 ]
  2. Santarelli F, Cassanello M, Enea A, Poma F, D'Onofrio V, Guala G, Garrone G, Puccinelli P, Caruso U, Porta F, Spada M: A neonatal case of 3-hydroxy-3-methylglutaric-coenzyme A lyase deficiency. Ital J Pediatr. 2013 May 24;39:33. doi: 10.1186/1824-7288-39-33. [PubMed:23705938 ]
  3. G.Frauendienst-Egger, Friedrich K. Trefz (2017). MetaGene: Metabolic & Genetic Information Center (MIC: http://www.metagene.de). METAGENE consortium.
3-Methylglutaconic aciduria type I
  1. Engelke UF, Kremer B, Kluijtmans LA, van der Graaf M, Morava E, Loupatty FJ, Wanders RJ, Moskau D, Loss S, van den Bergh E, Wevers RA: NMR spectroscopic studies on the late onset form of 3-methylglutaconic aciduria type I and other defects in leucine metabolism. NMR Biomed. 2006 Apr;19(2):271-8. [PubMed:16541463 ]
  2. Wortmann SB, Kremer BH, Graham A, Willemsen MA, Loupatty FJ, Hogg SL, Engelke UF, Kluijtmans LA, Wanders RJ, Illsinger S, Wilcken B, Cruysberg JR, Das AM, Morava E, Wevers RA: 3-Methylglutaconic aciduria type I redefined: a syndrome with late-onset leukoencephalopathy. Neurology. 2010 Sep 21;75(12):1079-83. doi: 10.1212/WNL.0b013e3181f39a8a. [PubMed:20855850 ]
  3. G.Frauendienst-Egger, Friedrich K. Trefz (2017). MetaGene: Metabolic & Genetic Information Center (MIC: http://www.metagene.de). METAGENE consortium.
Eosinophilic esophagitis
  1. Slae, M., Huynh, H., Wishart, D.S. (2014). Analysis of 30 normal pediatric urine samples via NMR spectroscopy (unpublished work). NA.
3-methylglutaconic aciduria type II, X-linked
  1. Cantlay AM, Shokrollahi K, Allen JT, Lunt PW, Newbury-Ecob RA, Steward CG: Genetic analysis of the G4.5 gene in families with suspected Barth syndrome. J Pediatr. 1999 Sep;135(3):311-5. [PubMed:10484795 ]
3-Methylglutaconic Aciduria type VI
  1. Wortmann S, Rodenburg RJ, Huizing M, Loupatty FJ, de Koning T, Kluijtmans LA, Engelke U, Wevers R, Smeitink JA, Morava E: Association of 3-methylglutaconic aciduria with sensori-neural deafness, encephalopathy, and Leigh-like syndrome (MEGDEL association) in four patients with a disorder of the oxidative phosphorylation. Mol Genet Metab. 2006 May;88(1):47-52. doi: 10.1016/j.ymgme.2006.01.013. Epub 2006 Mar 9. [PubMed:16527507 ]
3-Methylglutaconic Aciduria type IV
  1. Wortmann SB, Rodenburg RJ, Jonckheere A, de Vries MC, Huizing M, Heldt K, van den Heuvel LP, Wendel U, Kluijtmans LA, Engelke UF, Wevers RA, Smeitink JA, Morava E: Biochemical and genetic analysis of 3-methylglutaconic aciduria type IV: a diagnostic strategy. Brain. 2009 Jan;132(Pt 1):136-46. doi: 10.1093/brain/awn296. Epub 2008 Nov 16. [PubMed:19015156 ]
3-Methylglutaconic Aciduria type V
  1. Ojala T, Polinati P, Manninen T, Hiippala A, Rajantie J, Karikoski R, Suomalainen A, Tyni T: New mutation of mitochondrial DNAJC19 causing dilated and noncompaction cardiomyopathy, anemia, ataxia, and male genital anomalies. Pediatr Res. 2012 Oct;72(4):432-7. doi: 10.1038/pr.2012.92. Epub 2012 Jul 13. [PubMed:22797137 ]
3-Methylglutaconic aciduria type VII
  1. Wortmann SB, Zietkiewicz S, Kousi M, Szklarczyk R, Haack TB, Gersting SW, Muntau AC, Rakovic A, Renkema GH, Rodenburg RJ, Strom TM, Meitinger T, Rubio-Gozalbo ME, Chrusciel E, Distelmaier F, Golzio C, Jansen JH, van Karnebeek C, Lillquist Y, Lucke T, Ounap K, Zordania R, Yaplito-Lee J, van Bokhoven H, Spelbrink JN, Vaz FM, Pras-Raves M, Ploski R, Pronicka E, Klein C, Willemsen MA, de Brouwer AP, Prokisch H, Katsanis N, Wevers RA: CLPB mutations cause 3-methylglutaconic aciduria, progressive brain atrophy, intellectual disability, congenital neutropenia, cataracts, movement disorder. Am J Hum Genet. 2015 Feb 5;96(2):245-57. doi: 10.1016/j.ajhg.2014.12.013. Epub 2015 Jan 15. [PubMed:25597510 ]
Sengers syndrome
  1. Di Rosa G, Deodato F, Loupatty FJ, Rizzo C, Carrozzo R, Santorelli FM, Boenzi S, D'Amico A, Tozzi G, Bertini E, Maiorana A, Wanders RJ, Dionisi-Vici C: Hypertrophic cardiomyopathy, cataract, developmental delay, lactic acidosis: a novel subtype of 3-methylglutaconic aciduria. J Inherit Metab Dis. 2006 Aug;29(4):546-50. doi: 10.1007/s10545-006-0279-y. Epub 2006 May 30. [PubMed:16736096 ]
Associated OMIM IDs
  • 246450 (3-Hydroxy-3-methylglutaryl-CoA lyase deficiency)
  • 250950 (3-Methylglutaconic aciduria type I)
  • 610247 (Eosinophilic esophagitis)
  • 302060 (3-methylglutaconic aciduria type II, X-linked)
  • 614739 (3-Methylglutaconic Aciduria type VI)
  • 250951 (3-Methylglutaconic Aciduria type IV)
  • 610198 (3-Methylglutaconic Aciduria type V)
  • 616271 (3-Methylglutaconic aciduria type VII)
  • 212350 (Sengers syndrome)
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDFDB022090
KNApSAcK IDC00052150
Chemspider ID1267861
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia Link3-Methylglutaconic acid
METLIN ID5507
PubChem Compound1551553
PDB IDNot Available
ChEBI ID37245
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDMDB00000182
Good Scents IDNot Available
References
Synthesis ReferenceAoyama, Takayuki; Kato, Kazuo; Shimada, Nobuyoshi; Fujii, Akio; Takita, Tomohisa. Production of 3-methylglutaconic acid. Jpn. Kokai Tokkyo Koho (1986), 3 pp.
Material Safety Data Sheet (MSDS)Not Available
General References
  1. Mitchell GA, Jakobs C, Gibson KM, Robert MF, Burlina A, Dionisi-Vici C, Dallaire L: Molecular prenatal diagnosis of 3-hydroxy-3-methylglutaryl CoA lyase deficiency. Prenat Diagn. 1995 Aug;15(8):725-9. [PubMed:7479590 ]
  2. Holme E, Greter J, Jacobson CE, Larsson NG, Lindstedt S, Nilsson KO, Oldfors A, Tulinius M: Mitochondrial ATP-synthase deficiency in a child with 3-methylglutaconic aciduria. Pediatr Res. 1992 Dec;32(6):731-5. [PubMed:1287564 ]
  3. Costeff H, Elpeleg O, Apter N, Divry P, Gadoth N: 3-Methylglutaconic aciduria in "optic atrophy plus". Ann Neurol. 1993 Jan;33(1):103-4. [PubMed:8494328 ]
  4. Sheffer RN, Zlotogora J, Elpeleg ON, Raz J, Ben-Ezra D: Behr's syndrome and 3-methylglutaconic aciduria. Am J Ophthalmol. 1992 Oct 15;114(4):494-7. [PubMed:1384336 ]
  5. Kelley RI: Quantification of 3-methylglutaconic acid in urine, plasma, and amniotic fluid by isotope-dilution gas chromatography/mass spectrometry. Clin Chim Acta. 1993 Nov 15;220(2):157-64. [PubMed:8111960 ]
  6. Kelley RI, Kratz L: 3-methylglutaconic acidemia in Smith-Lemli-Opitz syndrome. Pediatr Res. 1995 May;37(5):671-4. [PubMed:7603789 ]
  7. Elshenawy S, Pinney SE, Stuart T, Doulias PT, Zura G, Parry S, Elovitz MA, Bennett MJ, Bansal A, Strauss JF 3rd, Ischiropoulos H, Simmons RA: The Metabolomic Signature of the Placenta in Spontaneous Preterm Birth. Int J Mol Sci. 2020 Feb 4;21(3). pii: ijms21031043. doi: 10.3390/ijms21031043. [PubMed:32033212 ]